genome.fa.s25.2.7.7.80.10.50.1000.15.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   

This is table  15  of  214  ( 25680 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4125361--4125428	26	2.7	26	79	6	68	16	19	23	41	1.90
4125326--4125549	24	9.1	25	68	12	90	20	24	19	36	1.95
4125470--4125587	48	2.4	49	76	10	125	21	24	18	35	1.95
4125775--4125802	5	5.6	5	100	0	56	39	0	21	39	1.54
4128995--4129040	21	2.0	24	84	12	62	39	8	4	47	1.54
4129165--4129202	20	1.9	19	94	5	67	42	0	5	52	1.24
4131241--4131291	20	2.6	20	81	3	68	54	1	0	43	1.11
4132376--4132449	28	2.6	28	84	0	94	24	21	6	47	1.75
4132363--4132540	56	3.2	55	80	8	157	23	20	5	50	1.69
4132396--4132846	28	15.8	28	72	12	159	23	18	5	53	1.65
4132363--4132800	55	7.7	55	73	11	265	23	18	5	53	1.65
4132529--4132609	39	2.1	39	92	0	135	17	20	6	55	1.63
4132471--4132652	95	1.9	96	86	1	258	22	17	6	54	1.64
4132415--4132719	150	2.0	148	80	7	330	21	18	5	53	1.65
4132601--4132817	27	7.9	27	75	10	147	24	14	4	55	1.58
4132564--4132810	57	4.5	55	78	8	187	24	15	4	55	1.60
4133716--4133767	26	2.0	26	85	7	70	32	21	19	26	1.97
4136989--4137085	50	1.9	51	83	6	126	42	15	5	37	1.69
4137224--4137294	24	3.0	23	74	13	72	56	2	2	38	1.29
4140851--4140922	35	2.1	35	97	0	135	36	13	9	40	1.78
4157822--4157853	16	1.9	17	93	6	57	46	3	0	50	1.17
4161143--4161396	125	2.0	125	93	0	436	24	16	21	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4164565--4164626	29	2.1	30	81	3	72	50	4	8	37	1.54
4173870--4173917	22	2.2	22	85	3	62	60	12	6	20	1.54
4175630--4175711	24	3.4	23	73	9	65	32	21	30	14	1.94
4178986--4179051	30	2.3	28	80	12	80	50	6	3	40	1.43
4179334--4179399	30	2.2	31	89	8	100	51	0	1	46	1.10
4179330--4179417	30	2.6	34	73	24	89	48	0	1	50	1.08
4187101--4187192	23	3.9	23	88	4	121	25	25	20	29	1.99
4187352--4187390	20	2.0	20	84	0	51	33	10	20	35	1.86
4189081--4189175	24	4.0	24	91	2	138	48	7	5	38	1.54
4191127--4191323	42	4.4	42	76	15	189	42	26	8	23	1.82
4191148--4191456	96	3.3	96	86	4	434	41	25	6	26	1.79
4193687--4194053	125	2.9	124	84	2	502	30	14	20	33	1.93
4197103--4197320	116	1.9	116	95	0	391	42	10	8	38	1.70
4197322--4197547	23	10.0	21	87	7	72	29	1	23	45	1.61
4197352--4197565	23	9.3	23	90	5	344	29	1	22	46	1.61
4197535--4197629	29	3.6	28	71	25	98	27	0	26	46	1.53
4197560--4197600	20	2.1	19	90	9	64	26	0	29	43	1.55
4197807--4197841	18	1.9	18	94	0	61	34	8	31	25	1.86
4199725--4199780	22	2.5	22	97	2	103	39	0	32	28	1.57
4199638--4199753	51	2.3	51	95	0	205	45	0	25	28	1.54
4201319--4201364	18	2.8	17	78	15	53	28	36	30	4	1.76
4201409--4201663	44	5.9	44	86	6	351	21	23	14	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4201409--4201663	86	2.9	86	91	2	395	21	23	14	41	1.89
4201409--4201662	130	2.0	129	87	4	368	21	23	14	40	1.89
4214495--4214554	7	8.7	7	77	14	54	41	1	3	53	1.27
4215552--4215690	40	3.5	40	72	10	117	27	17	24	30	1.97
4215721--4215747	6	4.5	6	100	0	54	14	33	33	18	1.92
4217543--4217572	14	2.1	15	93	6	53	40	10	0	50	1.36
4218033--4218094	31	2.0	32	87	3	90	29	16	27	27	1.97
4218437--4218495	27	2.1	28	93	3	102	33	20	13	32	1.91
4223825--4223992	47	3.6	45	70	19	132	45	2	3	47	1.35
4223751--4223958	91	2.3	91	89	0	317	46	3	3	46	1.37
4223772--4223933	44	3.6	43	69	19	116	45	1	3	48	1.30
4223771--4223847	28	2.8	28	73	9	52	42	1	3	51	1.28
4224372--4224441	16	4.4	16	96	0	104	32	35	0	31	1.58
4236676--4236925	123	2.0	123	99	0	491	28	19	15	36	1.93
4239875--4239925	19	2.7	19	79	11	61	37	3	3	54	1.37
4243927--4243982	27	2.1	27	83	12	71	48	19	12	19	1.80
4253342--4253384	22	2.0	21	90	4	68	53	2	0	44	1.13
4265400--4265426	11	2.5	11	100	0	54	22	7	18	51	1.70
4266827--4267020	92	2.1	92	88	5	286	44	4	4	46	1.41
4266998--4267096	52	2.0	52	80	11	118	45	6	2	46	1.39
4267053--4267086	17	2.0	17	94	0	59	44	5	0	50	1.26
4267058--4267105	17	3.0	16	79	17	55	45	6	2	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4267155--4267194	16	2.5	17	76	15	50	47	0	0	52	1.00
4267271--4267312	17	2.5	17	85	14	52	45	0	0	54	0.99
4267290--4267528	77	3.2	77	64	18	178	47	3	2	46	1.34
4267259--4267529	143	1.9	147	92	4	469	47	2	2	46	1.32
4267414--4267448	18	2.0	17	88	5	52	45	0	0	54	0.99
4267610--4267704	45	2.1	44	88	1	136	32	27	5	34	1.79
4267683--4267715	16	2.1	16	94	0	57	30	36	0	33	1.58
4271977--4272002	13	2.0	13	100	0	52	53	23	0	23	1.46
4272072--4272112	13	3.2	13	80	13	50	48	12	0	39	1.41
4272986--4273015	2	15.0	2	100	0	60	50	50	0	0	1.00
4279007--4279057	10	4.8	10	79	11	57	5	11	1	80	0.97
4279007--4279057	22	2.4	21	77	6	57	5	11	1	80	0.97
4284869--4284948	32	2.5	31	82	10	81	33	2	3	60	1.28
4284915--4284958	21	2.1	21	87	8	63	29	4	4	61	1.36
4296568--4296614	16	2.9	17	73	20	55	25	2	6	65	1.27
4296598--4296632	17	2.0	18	88	5	54	34	0	2	62	1.10
4302595--4302698	52	2.0	52	98	0	199	32	16	21	29	1.95
4326070--4326318	101	2.5	101	80	9	273	44	15	8	31	1.76
4327149--4327206	18	3.2	19	72	16	59	34	0	1	63	1.04
4327556--4327623	27	2.4	28	80	9	68	22	14	19	44	1.86
4327870--4328051	30	6.1	30	91	2	278	30	1	21	46	1.59
4327870--4328051	59	3.1	59	88	3	258	30	1	21	46	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4327870--4328053	88	2.1	90	89	2	291	30	1	22	46	1.59
4330226--4330281	25	2.3	25	80	14	64	62	5	0	32	1.18
4330372--4330441	30	2.3	31	92	4	117	67	0	0	32	0.91
4330471--4330521	22	2.3	21	87	9	75	37	0	33	29	1.58
4330493--4330580	30	2.9	30	96	0	158	37	0	32	29	1.58
4335808--4335865	29	2.0	30	83	10	75	48	13	10	27	1.75
4343655--4343680	12	2.2	12	100	0	52	53	0	7	38	1.30
4348091--4348119	14	2.0	15	93	6	51	37	20	0	41	1.53
4348814--4348865	21	2.5	21	80	0	59	34	1	32	30	1.69
4349111--4349166	24	2.3	25	78	12	71	32	12	17	37	1.88
4349158--4349211	12	4.7	12	81	9	51	48	0	0	51	1.00
4352462--4352537	29	2.7	28	80	8	82	19	23	23	32	1.97
4353181--4353219	13	3.3	12	86	13	55	33	0	17	48	1.48
4361475--4361521	21	2.2	21	81	11	51	34	6	8	51	1.58
4361806--4361928	62	2.0	62	95	0	219	28	21	19	30	1.98
4362367--4362400	10	3.4	10	88	11	52	61	0	0	38	0.96
4370148--4370500	174	2.0	174	94	1	618	19	30	13	36	1.90
4370642--4370871	117	2.0	117	95	0	415	26	27	11	33	1.91
4381138--4381248	27	3.9	26	78	15	114	30	30	24	14	1.94
4381001--4381186	102	1.8	102	90	0	300	30	29	22	17	1.97
4381107--4381246	60	2.3	60	92	0	226	34	28	22	15	1.94
4381012--4381324	162	1.9	162	97	0	590	31	30	21	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4382389--4382422	11	2.8	12	91	8	52	35	8	11	44	1.72
4383050--4383391	137	2.5	138	81	1	391	38	23	16	21	1.93
4383050--4383446	69	5.8	69	76	1	312	37	23	16	22	1.94
4383468--4383670	58	3.5	57	84	7	250	34	18	8	37	1.82
4394813--4394846	17	1.9	18	88	5	52	50	35	5	8	1.58
4400158--4400240	39	2.2	39	88	2	123	19	19	21	39	1.92
4400158--4400278	45	3.0	39	84	8	127	19	20	20	38	1.93
4400185--4400377	45	4.1	45	80	11	215	19	19	20	40	1.92
4400224--4400343	54	2.3	54	91	4	192	18	21	20	40	1.92
4400185--4400398	99	2.1	100	87	3	304	19	20	20	40	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214